Development of SNP in spotted steed (Hemibarbus maculatus Bleeker) using GBS sequencing

Spotted steed ( Hemibarbus maculatus ) is a native freshwater fish widely distributed in China, but data regarding its genetic markers are scarce. In this study, we used genotyping by sequencing (GBS) to develop single nucleotide polymorphisms (SNPs) from 56 individuals. We discovered a total of 57,523 genome-wide SNP markers. After applying strict filtering criteria, 166 high-qualified SNPs were obtained. Among these SNPs markers, 42 polymorphic markers were identified and characterized. The observed and expected heterozygosity ranged from 0.063 to 0.479 and 0.100 to 0.500, respectively. Polymorphic information content ranged from 0.094 to 0.372. Among these markers, no loci were significantly deviated from Hardy–Weinberg equilibrium. This study indicated that GBS sequencing allowed fast and efficient isolation of SNPs, and these results could provide a useful resource in further population genetic studies and genetic mapping in spotted steed.